Simulation of electrophoretic stretching of DNA in a microcontraction using an obstacle array for conformational preconditioning
Name
Doyle_Simulation of.pdf
Size
1.65 MB
Format
Adobe PDF
Checksum (MD5)
f95b8b61c602cf4853d3bcd522642e49
Author(s)
Doyle, Patrick S.
Trahan, Daniel Warner
Date Issued
January 2009
Journal
Biomicrofluidics
Publisher
American Institute of Physics
Citation
Trahan, Daniel W., and Patrick S. Doyle. “Simulation of electrophoretic stretching of DNA in a microcontraction using an obstacle array for conformational preconditioning.” Biomicrofluidics 3.1 (2009): 012803-14. © 2009 American Institute of Physics.
Version
Final published version
Abstract
Recently our group has reported experiments using an obstacle array to precondition the conformations of DNA molecules to facilitate their stretch in a microcontraction. Based upon previous successes simulating electrophoretic stretching in microcontractions without obstacles, we use our simulation model to study the deformation of DNA chains in a microcontraction preceded by an array of cylindrical obstacles. We compare our data to the experimental results and find good qualitative, and even quantitative, agreement concerning the behavior of the chains in the array; however, the simulations overpredict the mean stretch of the chains as they leave the contraction. We examine the amount of stretch gained between leaving the array and reaching the end of the contraction and speculate that the differences seen are caused by nonlinear electrokinetic effects that become important in the contraction due to a combination of field gradients and high field strengths.
MIT Department
Massachusetts Institute of Technology. Department of Chemical Engineering
Terms of Use
Article is made available in accordance with the publisher's policy and may be subject to US copyright law. Please refer to the publisher's site for terms of use.
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1063/1.3055275
